TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv3382c/lytB1:

update plot	correlation	link to info on gene
Rv2430c/PPE41	(cc=0.6241)	info on Rv2430c/PPE41
Rv0822c/-	(cc=0.5973)	info on Rv0822c/-
Rv1918c/PPE35	(cc=0.597)	info on Rv1918c/PPE35
Rv1059/-	(cc=0.5915)	info on Rv1059/-
Rv0305c/PPE6	(cc=0.584)	info on Rv0305c/PPE6
Rv2543/lppA	(cc=0.5555)	info on Rv2543/lppA
Rv3142c/-	(cc=0.5496)	info on Rv3142c/-
Rv2929/-	(cc=0.5489)	info on Rv2929/-
Rv1616/-	(cc=0.5473)	info on Rv1616/-
Rv1505c/-	(cc=0.5434)	info on Rv1505c/-

Correlation of Rv3382c/lytB1 with Rv0305c/PPE6

Normalized LFCs for Rv3382c/lytB1:
(description and provenance of datasets)

	Rv3382c/lytB1	Rv0305c/PPE6
Fe_supp_jason_reseq	-0.537	0.584
low_pH_jason_reseq	-0.453	-0.248
NO_jason_reseq	-0.129	-0.333
B6_jason_reseq	-0.782	-0.199
MHCII_jason_reseq	-0.265	0.274
Isoniazid02	0.4	-0.374
Rifampicin4	-0.027	0.133
Ethambutol3	0.499	0.022
Meropenem3	1.751	0.488
Vancomycin16	0.501	-0.255
Rv2680_day32	-2.159	-0.065
H37Rv_KO_MarP	-0.384	-0.106
hypoxia_3wks	0.128	0.195
hypoxia_6wks	-0.47	-0.104
glycerol	0.531	-0.252
cholesterol	0.472	-0.306
AJ	0.126	0.506
Bibs02	1.02	0.13
Bibs02c	1.322	0.247
BL6	0.745	0.258
BL6a	1.578	0.373
BXD01	0.16	0.345
BXD010	0.693	0.176
BXD011	1.176	0.352
BXD03	1.089	0.263
BXD04	0.461	0.162
BXD05	1.409	0.679
BXD06	0.929	0.201
BXD07	0.809	0.145
BXD08	0.705	0.476
BXD09	0.93	0.364
CAST	0.719	0.611
CCcont	0.315	0.096
DS01	0.291	0.558
DS02	0.507	0.501
DS04	-0.271	0.401
DS0c	0.707	0.46
GP01	-0.347	0.546
GP02	0.885	0.609
GP0c	-0.012	0.212
NOD	1.061	1.365
NZO	0.0	0.4
PWK	0.159	0.166
H37Rv_KO_CtpC	0.595	0.431
H37Rv_KO_CtpD	2.104	1.852
H37Rv_KO_Rv1272	0.912	1.229
H37Rv_KO_SugABC	0.798	1.067
H37Rv_KO_MbtN	1.1	0.798
Trans05	1.041	0.903
macrophage_unactivated	0.17	0.846
IL1	0.089	-0.208
Rapamycin	0.798	0.0
Tcell	-0.244	0.925
GMCSF	0.422	0.275
IFNab	0.599	-0.151
IFNg	0.893	0.561
IFNg_GMCSF1	-0.632	0.06
Rv1432_day32	-0.155	0.026
Rv1565c_day32	0.785	-0.13
secA2_input	-1.34	-0.621
delta_Rv3594	-0.396	0.0
delta_Rv3717	-1.029	-0.39
delta_Rv3811	-0.442	-0.097
delta_Rv0954	-0.384	-0.465
PonA1	-0.81	0.045
EccD1_KO	-1.033	-0.743
EspI_KO	-0.394	-0.627
PE35_KO	-0.324	-0.642
PPE68_KO	-0.646	-0.598
glycerol2	-0.671	-0.136
lignocerate	-0.872	-0.078
oleate	0.699	-0.138
phosphatidylcholine	-0.581	0.011
acetate	-0.04	-0.474
glucAc	-1.299	-0.345
Rv0950ko	0.54	0.911
Rv1096ko	-0.042	-0.208
Rv3684ko	-0.285	0.098
delta_otsA_trehalose	0.068	-0.191